A technique is disclosed that is useful for determining the presence of specific hybridization expression within an output pattern generated from a digitized image of a biological sample applied to an arrayed platform. The output pattern includes signals associated with noise, and signals associated with the biological sample, some of which are degraded or obscured by noise. The output pattern is first segmented using tessellation. Signal processing, such as interferometry, or more specifically, resonance interferometry, and even more specifically quantum resonance interferometry or stochastic resonance interferometry, is then used to amplify signals associated with the biological sample within the segmented output pattern having an intensity lower than the intensity of signals associated with noise so that they may be clearly distinguished from background noise. The improved detection technique allows repeatable, rapid, reliable, and inexpensive measurements of arrayed platform output patterns.
Legal claims defining the scope of protection, as filed with the USPTO.
1. A method for determining the presence of signals associated with specific constituents within a biological sample applied to an array of detectors by analyzing a digitized output pattern generated from the arrayed detectors, comprising the steps of: segmenting the output pattern using tessellation; and interferometrically enhancing the segmented output pattern utilizing quantum resonance interferometry to determine the presence of signals associated with the specific constituents on the array.
2. A method for analyzing an output pattern of an arrayed information structures having an array of elements to which a sample of biological material has been applied, to determine whether specific constituents are contained within the sample, the output pattern embodying spectral measurements of the arrayed information structure, comprising the steps of: segmenting the output pattern of the arrayed information structure using tessellation; convolving an expressor function with the spectral measurements of the segmented output pattern of the arrayed information structure to induce resonances; and detecting the resonances within the convolved segmented output pattern, if any, at each element in the arrayed information structure to determine whether specific constituents within the sample have associated with an element.
3. The method of claim 2 wherein the expresser function is a quantum expressor function.
4. The method of claim 2 wherein the expressor function is a stochastic expressor function.
5. The method of claim 2 wherein the arrayed information structure output pattern embodies measurement from a group consisting of intensity, amplitude, and phase.
6. The method of claim 2 wherein the arrayed information structure output pattern embodies digital or analog measurement.
7. The method of claim 2 wherein the spectral characteristics are selected from a group consisting of noise, signal, or noise coupled to signal.
8. The method of claim 2 wherein the step of inducing a resonance pattern includes the step of iteratively processing the arrayed information structure by performing a convergent reverberation to yield a resonance pattern representative of resonances between a predetermined set of selected expressor functions and the spectral measurements of the arrayed information structure until a predetermined degree of convergence is achieved between the resonances found in the resonance pattern and resonances expected the spectral characteristics of the arrayed information structure.
9. The method of claim 2 further including the initial steps of generating the expresser functions by: calculating values representative of a pre-selected Hamiltonian function; calculating harmonic amplitudes for the Hamiltonian function; generating an order function from the Hamiltonian; function measuring entrainment states of the order function; and modulating the order function using the entrainment states to yield the expressor function.
10. The method of claim 2 wherein the biological sample applied to the arrayed information structure is selected from a group consisting of a DNA, RNA, protein, peptide-nucleic acid (PNA) and targeted nucleic amplification (TNA) samples.
11. The method of claim 2 wherein the arrayed information structure is utilized for an application selected from the group consisting of molecular expression analysis, DNA expression analysis, RNA expression analysis, protein interactions analysis, protein-DNA interactions analysis, diagnostic analysis, and gene expression analysis.
12. The method of claim 2 wherein the arrayed information structure is based on the output of an array selected from a group consisting of biochips, microarrays, macroarrays, and protein chips.
13. The method of claim 2 wherein the arrayed information structure output pattern is selected from a group consisting of biochip output patterns, microarray output patterns, quantized output patterns, macroarray output patterns, dot spectrograms, and protein chip output patterns.
14. A system for analyzing output patterns generated from an arrayed information structures having an array of elements to which a biological sample has been applied, to determine the constituents of the biological sample, the output pattern embodying spectral measurements of the arrayed information structure, comprising: a tessellation unit for segmenting the output pattern of the arrayed information structure; an induction unit for convolving an expresser function with the spectral measurements of the segmented output pattern of the arrayed information structure to induce resonances; and a detection unit for detecting the resonances within the convolved segmented output pattern, if any, at each element in the arrayed information structure to determine if constituents within the sample have associated with an element.
15. The system of claim 14 wherein the arrayed information structures are utilized for an application selected from the group consisting of molecular expression analysis, DNA expression analysis, RNA expression analysis, protein interactions analysis, protein-DNA interactions analysis, diagnostic analysis, and gene expression analysis.
16. The system of claim 14 wherein the biological samples applied to the arrayed information structure is selected from a group consisting of a DNA, RNA, protein, peptide-nucleic acid (PNA) and targeted nucleic amplification (TNA) samples.
17. The system of claim 14 wherein the output pattern of the arrayed information structure is based on the output of an array selected from a group consisting of biochips, microarrays, macroarrays, and protein chips.
18. An article of manufacture, comprising a dataset, made by a method for analyzing output patterns of an arrayed information structures having an array of elements to which a sample of biological material has been applied, to determine whether specific constituents are contained within the sample, the output pattern embodying spectral measurements of the arrayed information structure, comprising the steps of: segmenting the output pattern of the arrayed information structure using tessellation; convolving an expresser function with the spectral measurements of the segmented output pattern of the arrayed information structure to induce resonances; and detecting the resonances within the convolved segmented output pattern, if any, at each element in the arrayed information structure to determine whether specific constituents within the sample associate with an element.
19. A method for analyzing an output pattern of an arrayed information structures having an array of elements to which a sample of biological material has been applied to determine whether specific constituents are contained within the sample, the output pattern embodying spectral measurements of the arrayed information structure, comprising the steps of: segmenting the output pattern using tessellation; convolving an expressor function with the spectral measurements of the segmented output pattern of the arrayed information structure to induce resonances; and performing convergent reverberant dynamics resonance analysis on the resonances associated with each element in the arrayed information structure to determine whether specific constituents within the sample associate with an element.
20. The method of claim 18 wherein the utilized interferometry is resonance interferometry.
21. The method of claim 20 wherein the utilized resonance interferometry is either quantum resonance interferometry or stochastic resonance interferometry.
22. A computer code product for analyzing an output pattern of an arrayed information structure having an array of elements to which a sample of biological material has been applied, to determine whether specific constituents are contained within the sample, the output pattern embodying spectral measurements of the arrayed information structure, comprising: computer code that segments the output pattern of the arrayed information structure using tessellation; computer code that convolves an expressor function with the spectral measurements of the segmented output pattern of the arrayed information structure to induce resonances; and computer code that detects the resonances within the convolved segmented output pattern, if any, at each element in the arrayed information structure to determine whether specific constituents within the sample have associated with an element.
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August 9, 2001
August 24, 2004
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